Run ID: ERR495202
Sample name:
Date: 01-04-2023 21:42:04
Number of reads: 985777
Percentage reads mapped: 99.03
Strain: lineage2.2.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.99 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 760265 | p.Met153Ile | missense_variant | 0.2 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763445 | c.78_79delCG | frameshift_variant | 0.22 |
mmpL5 | 775592 | p.Leu963Phe | missense_variant | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775759 | p.Thr908Ala | missense_variant | 0.12 |
mmpL5 | 775765 | p.Val906Ile | missense_variant | 0.12 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpR5 | 778139 | c.-851G>A | upstream_gene_variant | 0.15 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
atpE | 1460882 | c.-163T>C | upstream_gene_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1473495 | n.-161G>A | upstream_gene_variant | 0.15 |
rrl | 1473796 | n.139T>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1475624 | n.1967G>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476018 | n.2361G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476225 | n.2568T>A | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1673333 | c.-107C>A | upstream_gene_variant | 0.29 |
inhA | 1673916 | c.-286A>G | upstream_gene_variant | 0.1 |
inhA | 1674952 | p.Pro251Ala | missense_variant | 0.18 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155280 | p.Ala278Thr | missense_variant | 0.17 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.96 |
PPE35 | 2168533 | p.Val694Met | missense_variant | 0.13 |
PPE35 | 2168657 | c.1956T>A | synonymous_variant | 0.2 |
PPE35 | 2169720 | p.Gly298Asp | missense_variant | 0.12 |
Rv1979c | 2222541 | c.624T>C | synonymous_variant | 0.15 |
Rv1979c | 2222807 | p.Val120Leu | missense_variant | 0.13 |
Rv1979c | 2223014 | p.Tyr51Asn | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518603 | c.489G>A | synonymous_variant | 0.14 |
eis | 2714846 | p.Val163Ile | missense_variant | 1.0 |
folC | 2747097 | p.Val168Ile | missense_variant | 0.14 |
ribD | 2987144 | p.Gln102His | missense_variant | 0.15 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.33 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.23 |
thyA | 3074236 | p.Ile79Asn | missense_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339348 | c.231C>T | synonymous_variant | 0.15 |
Rv3083 | 3448576 | p.Ala25Thr | missense_variant | 0.18 |
Rv3083 | 3449912 | p.Ala470Val | missense_variant | 0.14 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiA | 3640403 | c.-140G>T | upstream_gene_variant | 0.15 |
fbiB | 3641696 | c.162C>T | synonymous_variant | 0.14 |
rpoA | 3878236 | p.Glu91Gly | missense_variant | 0.12 |
rpoA | 3878676 | c.-169G>T | upstream_gene_variant | 0.18 |
clpC1 | 4038737 | c.1968C>T | synonymous_variant | 0.12 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4245904 | p.Ser891Phe | missense_variant | 0.15 |
embB | 4247089 | c.576G>A | synonymous_variant | 0.15 |
embB | 4248115 | c.1602C>T | synonymous_variant | 1.0 |
aftB | 4267290 | p.Ala516Glu | missense_variant | 0.2 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4326153 | p.Arg441Cys | missense_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.96 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |